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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ), 'gf_id' => 'HOM05D001040', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001040' ), 'data_identifier' => 'HOM05D001040', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001040', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43660' => 'bna', 'A04p25520' => 'bna', 'A04p25530' => 'bna', 'A05p41770' => 'bna', 'A07p07900' => 'bna', 'A08p07020' => 'bna', 'A08p31390' => 'bna', 'A09p60990' => 'bna', 'Aa31LG5G16680' => 'aar', 'Aa31LG5G4090' => 'aar', 'Aa31LG7G720' => 'aar', 'Aa31LG8G11180' => 'aar', 'Aa31LG9G4410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.3691' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.505' => 'aag', 'Actinidia00087' => 'ach', 'Actinidia08517' => 'ach', 'Actinidia09410' => 'ach', 'Actinidia18267' => 'ach', 'Actinidia20345' => 'ach', 'Actinidia25489' => 'ach', 'Actinidia35939' => 'ach', 'Ah.10g029250' => 'amhyb', 'Ah.13g074250' => 'amhyb', 'AL1G28310' => 'aly', 'AL3G17030' => 'aly', 'AL3G39890' => 'aly', 'AL4G28820' => 'aly', 'AL4G29530' => 'aly', 'AL9U10320' => 'aly', 'Aqoxy2G03247' => 'aox', 'Aqoxy2G03249' => 'aox', 'Aqoxy2G03822' => 'aox', 'Aqoxy5G02906' => 'aox', 'Aqoxy7G02505' => 'aox', 'Aqoxy7G03773' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Q0EMW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.0W128L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2T5FTV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.56NXYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5PJ38T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GC7G5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.91Q601' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A9I7DL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AVG2RT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D93ZMI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FLE44X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H5WM6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JV2CAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S6TXJF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VK1ZUB' => 'arhy', 'AT1G16180' => 'ath', 'AT2G33205' => 'ath', 'AT3G06170' => 'ath', 'AT3G24460' => 'ath', 'AT4G13345' => 'ath', 'ATR0580G307' => 'atr', 'ATR0626G362' => 'atr', 'ATR0787G007' => 'atr', 'ATR1120G071' => 'atr', 'Atru.chr1.2820' => 'acertr', 'Atru.chr4.1815' => 'acertr', 'Atru.chr4.2580' => 'acertr', 'Atru.chr7.1314' => 'acertr', 'AUR62002648' => 'cqu', 'AUR62002670' => 'cqu', 'AUR62011014' => 'cqu', 'AUR62021525' => 'cqu', 'AUR62030062' => 'cqu', 'AUR62030063' => 'cqu', 'AUR62034045' => 'cqu', 'AUR62035323' => 'cqu', 'AUR62035926' => 'cqu', 'BcaB03g13046' => 'bca', 'BcaB03g14502' => 'bca', 'BcaB03g14584' => 'bca', 'BcaB04g17708' => 'bca', 'BcaB05g22309' => 'bca', 'BcaB06g26641' => 'bca', 'BcaB06g28661' => 'bca', 'BcaC01g03312' => 'bca', 'BcaC02g07852' => 'bca', 'BcaC05g29799' => 'bca', 'BcaC05g30045' => 'bca', 'BcaC06g35705' => 'bca', 'BcaC06g35796' => 'bca', 'BcaC07g37380' => 'bca', 'BcaNung05939' => 'bca', 'BolC3t17639H' => 'bol', 'BolC4t27748H' => 'bol', 'BolC4t27751H' => 'bol', 'BolC5t34757H' => 'bol', 'BolC7t41542H' => 'bol', 'BolC7t41655H' => 'bol', 'BolC8t47685H' => 'bol', 'BolC8t49366H' => 'bol', 'BolC8t52005H' => 'bol', 'BraA03t13503Z' => 'bra', 'BraA04t18056Z' => 'bra', 'BraA04t18057Z' => 'bra', 'BraA05t22896Z' => 'bra', 'BraA07t28579Z' => 'bra', 'BraA08t32712Z' => 'bra', 'BraA08t35062Z' => 'bra', 'BraA09t41472Z' => 'bra', 'C03p53770' => 'bna', 'C03p54810' => 'bna', 'C04p62670' => 'bna', 'C04p62680' => 'bna', 'C05p61010' => 'bna', 'C07p10760' => 'bna', 'C07p11850' => 'bna', 'C08p08320' => 'bna', 'C08p17400' => 'bna', 'C08p44570' => 'bna', 'CAN.G1008.15' => 'can', 'CAN.G1247.3' => 'can', 'CAN.G134.125' => 'can', 'CAN.G1588.6' => 'can', 'CAN.G215.1' => 'can', 'CAN.G355.16' => 'can', 'CANSAT54G0833' => 'cansat', 'CANSAT56G4456' => 'cansat', 'CANSAT64G0468' => 'cansat', 'CANSAT64G1050' => 'cansat', 'CANSAT78G0272' => 'cansat', 'CANSAT78G0674' => 'cansat', 'CARHR016660' => 'chi', 'CARHR080690' => 'chi', 'CARHR100550' => 'chi', 'CARHR127200' => 'chi', 'CARHR218890' => 'chi', 'Carub.0001s1594' => 'cru', 'Carub.0003s0561' => 'cru', 'Carub.0003s2476' => 'cru', 'Carub.0004s1466' => 'cru', 'Carub.0007s2924' => 'cru', 'Ca_00649_v3' => 'car', 'Ca_07512_v3' => 'car', 'Ca_11805_v3' => 'car', 'Ca_25440_v3' => 'car', 'CBR_g38094' => 'cbr', 'CBR_g38672' => 'cbr', 'Cc03_g03060' => 'ccan', 'Cc03_g07060' => 'ccan', 'Cc04_g05390' => 'ccan', 'Cc06_g09470' => 'ccan', 'CDE01G0412' => 'cde', 'CDE02G3476' => 'cde', 'CDE05G1484' => 'cde', 'CDE05G2163' => 'cde', 'CDE12G0798' => 'cde', 'Cfa001687' => 'cfa', 'Cfa004171' => 'cfa', 'Cfa005444' => 'cfa', 'Cfa015577' => 'cfa', 'Ciclev10005070m.g' => 'ccl', 'Ciclev10006912m.g' => 'ccl', 'Ciclev10008536m.g' => 'ccl', 'Ciclev10025720m.g' => 'ccl', 'CiPaw.01G051700' => 'cil', 'CiPaw.01G205800' => 'cil', 'CiPaw.02G091500' => 'cil', 'CiPaw.03G234300' => 'cil', 'CiPaw.04G166500' => 'cil', 'ClCG05G003680' => 'cla', 'ClCG06G005770' => 'cla', 'ClCG09G003420' => 'cla', 'ClCG11G002580' => 'cla', 'COL.COLO4_05726' => 'col', 'COL.COLO4_28007' => 'col', 'COL.COLO4_30900' => 'col', 'COL.COLO4_34889' => 'col', 'Cpa.g.sc16.31' => 'cpa', 'Cpa.g.sc23.123' => 'cpa', 'Cpa.g.sc59.69' => 'cpa', 'Cpa.g.sc68.35' => 'cpa', 'Cre07.g357750' => 'cre', 'Cre09.g412803' => 'cre', 'CsaV3_2G002380' => 'csa', 'CsaV3_3G011400' => 'csa', 'CsaV3_6G018550' => 'csa', 'CsaV3_7G031800' => 'csa', 'CSS0007430' => 'camsi', 'CSS0008319' => 'camsi', 'CSS0019599' => 'camsi', 'CSS0026222' => 'camsi', 'CSS0026888' => 'camsi', 'CSS0030978' => 'camsi', 'CSS0031351' => 'camsi', 'DCAR_002418' => 'dca', 'DCAR_010442' => 'dca', 'DCAR_010443' => 'dca', 'DCAR_024707' => 'dca', 'DCAR_025612' => 'dca', 'DCAR_027364' => 'dca', 'Dinv21439' => 'din', 'Dinv23263' => 'din', 'Dinv36610' => 'din', 'Dinv38292' => 'din', 'Dinv38386' => 'din', 'Dinv38387' => 'din', 'Dinv41585' => 'din', 'Duzib084G0989' => 'dzi', 'Duzib151G1101' => 'dzi', 'Duzib160G0753' => 'dzi', 'Duzib168G0262' => 'dzi', 'Duzib187G1629' => 'dzi', 'Duzib192G0628' => 'dzi', 'Duzib235G1108' => 'dzi', 'Duzib268G1418' => 'dzi', 'ECA233G3786' => 'eca', 'ECA234G0254' => 'eca', 'ECA234G2264' => 'eca', 'ECA240G0937' => 'eca', 'ECA247G4057' => 'eca', 'EL10Ac3g06336' => 'bvu', 'EL10Ac3g06770' => 'bvu', 'EL10Ac8g18521' => 'bvu', 'EL10Ac8g19427' => 'bvu', 'Eucgr.C01067' => 'egr', 'Eucgr.C03867' => 'egr', 'Eucgr.C04122' => 'egr', 'Eucgr.F03990' => 'egr', 'Eucgr.H00108' => 'egr', 'Eucgr.H03603' => 'egr', 'FAN02G1043' => 'fan', 'FAN05G2537' => 'fan', 'FAN07G1331' => 'fan', 'FAN09G1641' => 'fan', 'FAN12G1971' => 'fan', 'FAN12G2510' => 'fan', 'FAN12G3050' => 'fan', 'FAN14G1907' => 'fan', 'FAN17G1017' => 'fan', 'FAN17G3080' => 'fan', 'FAN19G0741' => 'fan', 'FAN22G0917' => 'fan', 'FAN23G0609' => 'fan', 'FAN26G2070' => 'fan', 'FAN26G3117' => 'fan', 'FAN27G0056' => 'fan', 'FAN28G2873' => 'fan', 'FvH4_1g05181' => 'fve', 'FvH4_2g21120' => 'fve', 'FvH4_4g05470' => 'fve', 'FvH4_4g14410' => 'fve', 'FvH4_6g01200' => 'fve', 'FvH4_6g28080' => 'fve', 'Glyma.05G232100' => 'gma', 'Glyma.07G088400' => 'gma', 'Glyma.08G039500' => 'gma', 'Glyma.08G353600' => 'gma', 'Glyma.09G188500' => 'gma', 'Glyma.13G209400' => 'gma', 'Glyma.15G103267' => 'gma', 'Glyma.18G170200' => 'gma', 'Glyma.20G078900' => 'gma', 'Gohir.A02G028700' => 'ghi', 'Gohir.A05G021900' => 'ghi', 'Gohir.A06G141800' => 'ghi', 'Gohir.A06G194900' => 'ghi', 'Gohir.A07G003800' => 'ghi', 'Gohir.A09G201950' => 'ghi', 'Gohir.A10G120400' => 'ghi', 'Gohir.D02G036400' => 'ghi', 'Gohir.D05G023500' => 'ghi', 'Gohir.D06G145900' => 'ghi', 'Gohir.D06G202600' => 'ghi', 'Gohir.D07G004300' => 'ghi', 'Gohir.D09G195900' => 'ghi', 'Gohir.D09G195966' => 'ghi', 'Gohir.D10G146100' => 'ghi', 'Gorai.001G003900' => 'gra', 'Gorai.005G040500' => 'gra', 'Gorai.006G219300' => 'gra', 'Gorai.009G023600' => 'gra', 'Gorai.010G170100' => 'gra', 'Gorai.010G236500' => 'gra', 'Gorai.011G163200' => 'gra', 'GSVIVG01015418001' => 'vvi', 'GSVIVG01016078001' => 'vvi', 'GSVIVG01017882001' => 'vvi', 'GSVIVG01029029001' => 'vvi', 'HanXRQChr01g0030081' => 'han', 'HanXRQChr02g0033691' => 'han', 'HanXRQChr02g0059451' => 'han', 'HanXRQChr03g0061941' => 'han', 'HanXRQChr04g0100001' => 'han', 'HanXRQChr07g0187141' => 'han', 'HanXRQChr10g0310391' => 'han', 'HanXRQChr10g0317831' => 'han', 'HanXRQChr12g0355711' => 'han', 'Haze_00969' => 'cav', 'Haze_11537' => 'cav', 'Haze_15239' => 'cav', 'Haze_25692' => 'cav', 'Haze_25693' => 'cav', 'Haze_25740' => 'cav', 'Haze_25742' => 'cav', 'Hma1.2p1_0018F.1_g013240' => 'hma', 'Hma1.2p1_0338F.1_g129660' => 'hma', 'Hma1.2p1_0903F.1_g234980' => 'hma', 'Hma1.2p1_1037F.1_g250670' => 'hma', 'Hma1.2p1_1644F.1_g295330' => 'hma', 'Hma1.2p1_2329F.1_g320060' => 'hma', 'HPP92_000041' => 'vpl', 'HPP92_008695' => 'vpl', 'HPP92_027013' => 'vpl', 'HPP92_027024' => 'vpl', 'Hund09193' => 'sun', 'Hund12203' => 'sun', 'Hund22397' => 'sun', 'Hund24852' => 'sun', 'Hund26137' => 'sun', 'Lalb_Chr01g0011231' => 'lal', 'Lalb_Chr14g0371381' => 'lal', 'Lalb_Chr14g0371391' => 'lal', 'Lalb_Chr14g0371401' => 'lal', 'Lalb_Chr16g0388011' => 'lal', 'Lalb_Chr19g0125621' => 'lal', 'Lalb_Chr20g0118391' => 'lal', 'Lalb_Chr22g0352931' => 'lal', 'Lj1g0014351' => 'lja', 'Lj2g0001998' => 'lja', 'Lj3C598T15' => 'lonja', 'Lj4g0024805' => 'lja', 'Lj5A82T34' => 'lonja', 'Lj6C564G2' => 'lonja', 'Lj6g0006756' => 'lja', 'Lj6g0014723' => 'lja', 'Lj7C646T5' => 'lonja', 'Lj9A490T31' => 'lonja', 'Lju414C2T1' => 'lonja', 'Lsat_1_v5_gn_1_30761' => 'lsa', 'Lsat_1_v5_gn_5_101240' => 'lsa', 'Lsat_1_v5_gn_5_76940' => 'lsa', 'Lsat_1_v5_gn_6_63101' => 'lsa', 'Lsat_1_v5_gn_7_42300' => 'lsa', 'Manes.03G185300' => 'mes', 'Manes.04G098900' => 'mes', 'Manes.11G070700' => 'mes', 'Manes.15G022300' => 'mes', 'Manes.15G049900' => 'mes', 'Manes.16G070300' => 'mes', 'Mapoly0094s0052' => 'mpo', 'Mapoly0166s0004' => 'mpo', 'MBI01_g16633_MAGBIO' => 'mbi', 'MBI10_g16820_MAGBIO' => 'mbi', 'MBI14_g16431_MAGBIO' => 'mbi', 'MBI19_g03953_MAGBIO' => 'mbi', 'MCO10G353' => 'mco', 'MD02G1063500' => 'mdo', 'MD02G1063900' => 'mdo', 'MD09G1229700' => 'mdo', 'MD13G1182500' => 'mdo', 'MD13G1230200' => 'mdo', 'MD15G1188500' => 'mdo', 'MD16G1183000' => 'mdo', 'MD17G1228400' => 'mdo', 'Medtr1g046480' => 'mtr', 'Medtr2g022060' => 'mtr', 'Medtr6g086060' => 'mtr', 'Medtr7g057720' => 'mtr', 'Medtr8g103740' => 'mtr', 'MELO3C004548.2' => 'cme', 'MELO3C021398.2' => 'cme', 'MELO3C023477.2' => 'cme', 'MELO3C031654.2' => 'cme', 'Migut.G00260' => 'egut', 'Migut.G00608' => 'egut', 'Migut.I00633' => 'egut', 'MSTRG.22837' => 'ama', 'MSTRG.3987' => 'ama', 'MSTRG.4201' => 'ama', 'Nitab4.5_0000729g0140' => 'nta', 'Nitab4.5_0001948g0050' => 'nta', 'Nitab4.5_0002182g0110' => 'nta', 'Nitab4.5_0002295g0020' => 'nta', 'Nitab4.5_0002594g0020' => 'nta', 'Nitab4.5_0003782g0110' => 'nta', 'Nitab4.5_0004194g0020' => 'nta', 'Nitab4.5_0004576g0060' => 'nta', 'Nitab4.5_0005437g0010' => 'nta', 'Nitab4.5_0006812g0030' => 'nta', 'Nn1g02146' => 'nnu', 'Nn2g12478' => 'nnu', 'Nn2g12479' => 'nnu', 'Nn3g19864' => 'nnu', 'Nn4g26173' => 'nnu', 'Nn8g39250' => 'nnu', 'Nn8g40136' => 'nnu', 'Oeu003114.2' => 'oeu', 'Oeu006711.1' => 'oeu', 'Oeu017574.1' => 'oeu', 'Oeu018266.1' => 'oeu', 'Oeu028090.1' => 'oeu', 'Oeu029303.1' => 'oeu', 'Oeu042782.1' => 'oeu', 'Oeu048659.2' => 'oeu', 'Oeu051548.1' => 'oeu', 'Os01g0179800' => 'osa', 'Os02g0792900' => 'osa', 'Os03g0454100' => 'osa', 'Os04g0506300' => 'osa', 'Peaxi162Scf00047g01545' => 'pax', 'Peaxi162Scf00314g00936' => 'pax', 'Peaxi162Scf00560g00516' => 'pax', 'Peaxi162Scf00769g00021' => 'pax', 'PGR004G2198' => 'pgr', 'PGR004G2858' => 'pgr', 'PGR102G0996' => 'pgr', 'PGR142G1923' => 'pgr', 'PGSC0003DMG400011576' => 'stu', 'PGSC0003DMG400014159' => 'stu', 'PGSC0003DMG400019441' => 'stu', 'PGSC0003DMG400030792' => 'stu', 'Phvul.002G314300' => 'pvu', 'Phvul.004G161400' => 'pvu', 'Phvul.006G154400' => 'pvu', 'Phvul.007G238300' => 'pvu', 'Phvul.008G126100' => 'pvu', 'Potri.001G038100' => 'ptr', 'Potri.003G174200' => 'ptr', 'Potri.003G186500' => 'ptr', 'Potri.008G201900' => 'ptr', 'Potri.018G076000' => 'ptr', 'Pp3c11_13680' => 'ppa', 'Pp3c14_4830' => 'ppa', 'Pp3c9_17230' => 'ppa', 'PRCOL_00004390' => 'pco', 'PRCOL_00005786' => 'pco', 'Prupe.1G056600' => 'ppe', 'Prupe.1G150400' => 'ppe', 'Prupe.3G105800' => 'ppe', 'Prupe.7G228000' => 'ppe', 'Psat1g040000' => 'psa', 'Psat1g183760' => 'psa', 'Psat3g145560' => 'psa', 'Psat6g047480' => 'psa', 'Psat7g014000' => 'psa', 'PSO017G7354' => 'pso', 'PSO063G4658' => 'pso', 'PSO170G2444' => 'pso', 'PSO170G4161' => 'pso', 'PSO170G5220' => 'pso', 'PSO210G0816' => 'pso', 'PSO210G2355' => 'pso', 'PSO210G6008' => 'pso', 'PSO210G6160' => 'pso', 'PSO339G3781' => 'pso', 'PSO407G0079' => 'pso', 'PSO407G0141' => 'pso', 'PSO541G6289' => 'pso', 'PSO724G0593' => 'pso', 'PSO729G0070' => 'pso', 'PSO782G3386' => 'pso', 'QL02p085874' => 'qlo', 'QL05p081581' => 'qlo', 'QL06p005414' => 'qlo', 'QL06p022753' => 'qlo', 'RcHm_v2.0_Chr2g0090921' => 'rch', 'RcHm_v2.0_Chr2g0130961' => 'rch', 'RcHm_v2.0_Chr2g0131941' => 'rch', 'RcHm_v2.0_Chr4g0396601' => 'rch', 'RcHm_v2.0_Chr4g0418471' => 'rch', 'RcHm_v2.0_Chr4g0421091' => 'rch', 'Rhsim01G0092900' => 'rsi', 'Rhsim01G0094000' => 'rsi', 'Rhsim02G0019600' => 'rsi', 'Rhsim08G0202300' => 'rsi', 'Rhsim09G0046500' => 'rsi', 'Rhsim09G0047100' => 'rsi', 'RhsimUnG0181900' => 'rsi', 'RhsimUnG0182000' => 'rsi', 'Sabra01G0026700' => 'sbr', 'Sabra03G0127700' => 'sbr', 'Sabra03G0136600' => 'sbr', 'Sabra08G0159500' => 'sbr', 'Sabra18G0065000' => 'sbr', 'SalBow1G8548' => 'sbo', 'SalBow2G1751' => 'sbo', 'SalBow2G2013' => 'sbo', 'SalBow7G0298' => 'sbo', 'Sc08g0007340' => 'sci', 'Sc12g0008600' => 'sci', 'Sc13g0003910' => 'sci', 'Sc18g0001110' => 'sci', 'Sc19g0005850' => 'sci', 'Sc19g0005900' => 'sci', 'Sed0003214' => 'sed', 'Sed0009397' => 'sed', 'Sed0012180' => 'sed', 'Sed0012929' => 'sed', 'Sed0021788' => 'sed', 'SEGI_03059' => 'sgi', 'SEGI_23157' => 'sgi', 'SEGI_24091' => 'sgi', 'SEGI_24898' => 'sgi', 'SEGI_26477' => 'sgi', 'SEGI_36941' => 'sgi', 'SEGI_38148' => 'sgi', 'SEGI_39494' => 'sgi', 'SGA_v2.0_scaffold155G37229' => 'sas', 'SGA_v2.0_scaffold237G43837' => 'sas', 'SGA_v2.0_scaffold37G14650' => 'sas', 'SHI00360' => 'shi', 'SHI11343' => 'shi', 'SHI11344' => 'shi', 'SMO119G0445' => 'smo', 'SMO163G0029' => 'smo', 'SMO203G0037' => 'smo', 'SMO347G0152' => 'smo', 'SMO351G0566' => 'smo', 'Solyc01g097650.3' => 'sly', 'Solyc03g117770.3' => 'sly', 'Solyc06g054420.3' => 'sly', 'Solyc07g021150.1' => 'sly', 'Solyc09g091200.3' => 'sly', 'Sopen00g003560' => 'spe', 'Sopen01g041260' => 'spe', 'Sopen03g036680' => 'spe', 'Sopen06g019500' => 'spe', 'Sopen09g034170' => 'spe', 'Sp1g14420' => 'spa', 'Sp3g05150' => 'spa', 'Sp3g22230' => 'spa', 'Sp4g15500' => 'spa', 'Sp5g34730' => 'spa', 'Sp7g10910' => 'spa', 'TAR362G1209' => 'tar', 'TAR383G0275' => 'tar', 'TAR624G1036' => 'tar', 'TAR625G0041' => 'tar', 'TAR626G1212' => 'tar', 'TAR626G1450' => 'tar', 'TAR636G2106' => 'tar', 'THA.LOC104804578' => 'tha', 'THA.LOC104808162' => 'tha', 'THA.LOC104816016' => 'tha', 'THA.LOC104818789' => 'tha', 'Thecc.04G214900' => 'tca', 'Thecc.04G220900' => 'tca', 'Thecc.06G133600' => 'tca', 'Thecc.09G113400' => 'tca', 'Thhalv10002545m.g' => 'esa', 'Thhalv10007762m.g' => 'esa', 'Thhalv10016703m.g' => 'esa', 'Thhalv10020853m.g' => 'esa', 'Thhalv10025402m.g' => 'esa', 'TPR.G11290' => 'tpr', 'TPR.G11304' => 'tpr', 'TPR.G14184' => 'tpr', 'TPR.G20698' => 'tpr', 'TPR.G21717' => 'tpr', 'TPR.G23279' => 'tpr', 'TPR.G38994' => 'tpr', 'TPR.G40429' => 'tpr', 'TWI09G0288' => 'twi', 'TWI32G0583' => 'twi', 'TWI34G1647' => 'twi', 'TWI79G1729' => 'twi', 'unitig_26.g8941' => 'ugi', 'vmacro00520' => 'vma', 'vmacro15300' => 'vma', 'vmacro19081' => 'vma', 'vmacro20661' => 'vma', 'VMungo0251G0152' => 'vmu', 'VMungo0464G0524' => 'vmu', 'VMungo0540G0700' => 'vmu', 'VMungo0720G1613' => 'vmu', 'VMungo1383G2383' => 'vmu', 'Zm00001eb043310' => 'zma', 'Zm00001eb077960' => 'zma', 'Zm00001eb122220' => 'zma', 'Zm00001eb203190' => 'zma', 'Zm00001eb257640' => 'zma', 'Zm00001eb276320' => 'zma', 'Zm00001eb276330' => 'zma', 'Zm00001eb276340' => 'zma', 'Zm00001eb276380' => 'zma', 'Zm00001eb276400' => 'zma', 'Zm00001eb276430' => 'zma', 'Zm00001eb276470' => 'zma', 'Zm00001eb337110' => 'zma' ) $gf_id = 'HOM05D001040' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001040' ) $data_identifier = 'HOM05D001040' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 18, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 6, 'aox' => (int) 6, 'arhy' => (int) 15, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 9, 'bca' => (int) 15, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 8, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 6, 'fan' => (int) 17, 'fve' => (int) 6, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 7, 'hma' => (int) 6, 'vpl' => (int) 4, 'sun' => (int) 5, 'lal' => (int) 8, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 9, 'osa' => (int) 4, 'pax' => (int) 4, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 3, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 5, 'pso' => (int) 16, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 8, 'sbr' => (int) 5, 'sbo' => (int) 4, 'sci' => (int) 6, 'sed' => (int) 5, 'sgi' => (int) 8, 'sas' => (int) 3, 'shi' => (int) 3, 'smo' => (int) 5, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 4, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb337110' $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